| Literature DB >> 31921362 |
Pavel Jedlicka1, Matej Lexa2, Ivan Vanat2, Roman Hobza1, Eduard Kejnovsky1.
Abstract
[This corrects the article DOI: 10.1186/s13100-019-0186-z.].Entities:
Year: 2020 PMID: 31921362 PMCID: PMC6947867 DOI: 10.1186/s13100-019-0199-7
Source DB: PubMed Journal: Mob DNA
Palindromes within sequences flanking the insertion site. We used the paldpl program to detect approximate palindromes of at least 3 bp with no more than 30% mismatches or indels. This analysis was done in native flanking sequences identified in plant genomes and their randomized (permutated) counterparts, to control for base content effects. We carried out a paired t-test for difference in calculated stem lengths of the native and randomized palindromes. Significant values after Benjamini-Hochberg correction for multiple family testing are marked with an asterisk and printed in bold (* for p < 0.1, ** for p < 0.01 and *** for p < 0.001). Three families with increased mean palindrome stem length after randomization are marked with a tilde
| Group | Count | Palindrome length | Paired t-test | |
|---|---|---|---|---|
| ALL | 14,813 | 5.5 | 5.4 | |
| Ale | 1314 | 5.5 | 5.5 | 0.93 |
| Alesia | 21 | 5.8 | 5.7 | 0.75 |
| Angela | 91 | 5.3 | 5.3 | 0.93 |
| Athila | 1088 | 5.5 | 5.3 | |
| CRM | 482 | 5.3 | 5.2 | 0.53 |
| Galadriel | 49 | 5.4 | 5.1 | 0.40 |
| Ikeros | 348 | 5.5 | 5.3 | 0.10 |
| Ivana | 1018 | 5.5 | 5.3 | |
| Ogre | 1520 | 5.5 | 5.4 | 0.64 |
| Phygy | 285 | 5.3 | 5.3 | 0.94 |
| Reina | 852 | 5.4 | 5.4 | 0.67 |
| Retand | 2078 | 5.4 | 5.3 | 0.37 |
| Sire | 1225 | 5.4 | 5.2 | |
| Tcn1 | 1947 | 5.5 | 5.4 | |
| TAR | 477 | 5.5 | 5.4 | 0.14 |
| Tekay | 1029 | 5.4 | 5.4 | 0.61 |